Browse entries in the PDBbind-CN Database

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Related entries of code: 3djx
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
1n3zRCSB PDB    PDBbind124aa, >1N3Z_1|Chain... *
3djoRCSB PDB    PDBbind124aa, >3DJO_1|Chains... at 100%
3djpRCSB PDB    PDBbind124aa, >3DJP_1|Chains... at 100%
3djqRCSB PDB    PDBbind124aa, >3DJQ_1|Chains... at 100%
3djvRCSB PDB    PDBbind124aa, >3DJV_1|Chains... at 100%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
1rnmRCSB PDB    PDBbindC5P
4g0qRCSB PDB    PDBbindC5P
5dv2RCSB PDB    PDBbindC5P
5km2RCSB PDB    PDBbindC5P
6oh2RCSB PDB    PDBbindC5P
6i1rRCSB PDB    PDBbindC5P
Entry Information
PDB ID3djx
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein NameSeminal ribonuclease
Ligand NameC5P
EC.Number E.C.3.1.27.5
Resolution 1.69(Å)
Affinity (Kd/Ki/IC50)Ki=1557.9uM
Release Year2009
Protein/NA SequenceCheck fasta file
Primary Reference (2009) Eur.J.Med.Chem. Vol. 44: pp. 4496-4508
Ligand Properties
Formula C9H16N3O8P
Molecular Weight 325.212
Exact Mass 325.068
No. of atoms 37
No. of bonds 38
Polar Surface Area 195.36
LOGP Value -2.93      (Computed with XLOGP3)
-2.88      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 2
No. of Hydrogen Bond Acceptors: 6
No. of Rotatable Bonds: 5
No. of Nitrogen and Oxygen Atoms: 11
No. of Rings: 2
Canonical SMILES
InChI String

Links to External Databases
RCSB PDBThe mother database
PDBsumEnhanced annotations on PDB entries
PubchemComprehensive collection of chemical and biological data
UniProtKB ACUniProt accession number (AC): P00669  
Entrez Gene IDNCBI Entrez Gene ID: 280930  
ASDInformation of known allosteric effects of PDB entries
 
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